PDB
9V6O
Resolution
2.8 Å
Released
Nov. 19, 2025
Receptor
κ
Class
A
Species
Homo sapiens
Ligand
nalfurafine
Function
Agonist
Reference
10.1038/S41467-025-64882-1

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Ligand Amino Acid Generic Number Segment Interaction Type
nalfurafine Q115 2.60x60 TM2 polar (hydrogen bond)
nalfurafine V134 3.28x28 TM3 Van der Waals
nalfurafine L135 3.29x29 TM3 hydrophobic
nalfurafine L135 3.29x29 TM3 Van der Waals
nalfurafine D138 3.32x32 TM3 polar (charge-assisted hydrogen bond)
nalfurafine Y139 3.33x33 TM3 polar (hydrogen bond)
nalfurafine Y139 3.33x33 TM3 Van der Waals
nalfurafine M142 3.36x36 TM3 hydrophobic
nalfurafine M142 3.36x36 TM3 Van der Waals
nalfurafine C210 45.50x50 ECL2 Van der Waals
nalfurafine V230 5.42x43 TM5 Van der Waals
nalfurafine W287 6.48x48 TM6 hydrophobic
nalfurafine W287 6.48x48 TM6 Van der Waals
nalfurafine I290 6.51x51 TM6 hydrophobic
nalfurafine I290 6.51x51 TM6 Van der Waals
nalfurafine H291 6.52x52 TM6 Van der Waals
nalfurafine H291 6.52x52 TM6 aromatic (face-to-edge)
nalfurafine I294 6.55x55 TM6 Van der Waals
nalfurafine I294 6.55x55 TM6 hydrophobic
nalfurafine Y312 7.35x34 TM7 Van der Waals
nalfurafine I316 7.39x38 TM7 hydrophobic
nalfurafine I316 7.39x38 TM7 Van der Waals
nalfurafine G319 7.42x41 TM7 Van der Waals
nalfurafine Y320 7.43x42 TM7 hydrophobic
nalfurafine Y320 7.43x42 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
ICL1 T K M K ICL1ECL1 S W P F ECL1ICL2 P V K A L D F R ICL2ECL2 G T K V R E D V D V I E C S L Q F P D D ECL2ICL3 R L L S G ICL3ECL3 S T S H ECL3N-term M D S P I Q I F R G E P G P T C A P S A C L P P N S S A W F P G W A E P D S N G S A G S E D A Q L E P A H I S P N-termC-term P L K M R M E R Q S T S R V R N T V Q D P A Y L R D I D G M N K P V C-term A I P V I I T A V Y S V V F V V G L V G N S L V M F V I I R Y T A T N I Y I F N L A L A D A L V T T T M P F Q S T V Y L M N G D V L C K I V I S I D Y Y N M F T S I F T L T M M S V D R Y I A V C H T P L K A K I I N I C I W L L S S S V G I S A I V L G D Y S W W D L F M K I C V F I F A F V I P V L I I I V C Y T L M I L R L K S V S R E K D R N L R R I T R L V L V V V A V F V V C W T P I H I F I L V E A L G S T A A L S S Y Y F C I A L G Y T N S S L N P I L Y A F L D E N F R D F K R C F C F
Helix box plot — Download: PNG | SVG S N G V L G V V F V V S Y V A T I I V P 1 F N L A L A D A L V T T T M P F Q S T V 2 M T L T F I S T F M N Y Y D I S I V I K 3 A K I I N I C I W L L S S S V G I S A I 4 Y C V I I I L V P I V F A F I F V C I K M 5 L V V V A V F V V C W T P I H I F I L V 6 I P N L S S N T Y G L A I C F Y Y S S 7

GPCRdb(A)
GPCRdb(A)
κ receptor
TM2
2x60 2.60x60 Q115
TM3
3x28 3.28x28 V134
3x29 3.29x29 I135
3x32 3.32x32 D138
3x33 3.33x33 Y139
3x36 3.36x36 M142
ECL2
45x50 45.50x50 C210
TM5
5x43 5.42x43 V230
TM6
6x48 6.48x48 W287
6x51 6.51x51 I290
6x52 6.52x52 H291
6x55 6.55x55 I294
TM7
7x34 7.35x34 Y312
7x38 7.39x38 I316
7x41 7.42x41 G319
7x42 7.43x42 Y320